Sphingopyxis panaciterrae sp. nov., isolated from soil of ginseng field

Journal of Microbiology and Biotechnology

Volumn 18, Issue 6, 2008, Pages 1011-1015

  Lee, Hae Won ^a   Ten, Irina L ^b   Jung, Hae Min ^a   Liu, Qing Mei ^a   Im, Wan Taek ^a   Lee, Sung Taik ^a  

^a Korea Advanced Institute of Science and Technology (KAIST)   (South Korea)

^b PAVLOV FIRST SAINT PETERSBURG STATE MEDICAL UNIVERSITY   (Russian Federation)

Author keywords

Ginseng field soil; Polyphasic taxonomy; Sphingopyxis panaciterrae sp. nov

Indexed keywords

FATTY ACID; GENOMIC DNA; GLYCOSPHINGOLIPID; PHOSPHATIDYLCHOLINE; PHOSPHATIDYLETHANOLAMINE; PHOSPHATIDYLGLYCEROL; RNA 16S; UBIDECARENONE; BACTERIAL DNA;

AEROBIC BACTERIUM; ARTICLE; BACTERIAL STRAIN; BACTERIUM ISOLATE; DNA DNA HYBRIDIZATION; GC RICH SEQUENCE; GENE SEQUENCE; GINSENG; GRAM NEGATIVE BACTERIUM; NEW SPECIES; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; SEQUENCE ANALYSIS; SPHINGOPYXIS ALASKENSIS; SPHINGOPYXIS MACROGOLTABIDA; SPHINGOPYXIS PANACITERRAE; SPHINGOPYXIS TAEJONENSIS; SPHINGOPYXIS WITFLARIENSIS; BACTERIAL GENE; CHEMISTRY; DNA BASE COMPOSITION; DNA SEQUENCE; GENETICS; ISOLATION AND PURIFICATION; KOREA; MICROBIOLOGY; NUCLEIC ACID HYBRIDIZATION; PHENOTYPE; RNA GENE; SPHINGOMONADACEAE;

BACTERIA (MICROORGANISMS); NEGIBACTERIA; PANAX GINSENG; SPHINGOMONAS TAEJONENSIS; SPHINGOPYXIS; SPHINGOPYXIS ALASKENSIS; SPHINGOPYXIS CHILENSIS; SPHINGOPYXIS MACROGOLTABIDA; SPHINGOPYXIS WITFLARIENSIS;

BASE COMPOSITION; DNA, BACTERIAL; FATTY ACIDS; GENES, BACTERIAL; GENES, RRNA; KOREA; NUCLEIC ACID HYBRIDIZATION; PANAX; PHENOTYPE; PHYLOGENY; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA; SOIL MICROBIOLOGY; SPHINGOMONADACEAE;

EID: 53149141083     PISSN: 10177825     EISSN: 17388872     Source Type: Journal    
DOI: None     Document Type: Article

References (27)

1. An, D.-S., W.-T. Im, S.-T. Lee, W.-Y. Choi, and M.-H. Yoon. 2007. Chitinophaga soli sp. nov. and Chitinophaga terrae sp. nov., isolated from soil of a ginseng field in Pocheon province, Korea. J. Microbiol. Biotechnol. 17: 705-711.
2. Buck, J. D. 1982. Nonstaining (KOH) method for determination of Gram reactions of marine bacteria. Appl. Environ. Microbiol. 44: 992-993.
3. Ezaki, T., Y. Hashimoto, and E. Yabuuchi. 1989. Fluorometric DNA - DNA hybridization in microdilution wells as an alternative to membrane filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains. Int. J. Syst. Bacteriol. 39: 224-229.
4. Fitch, W. M. 1972. Toward defining the course of evolution: Minimum change for a specific tree topology. Syst. Zool. 20: 406-416.
5. Godoy, F., M. Vancanneyt, M. Martínez, A. Steinbüchel, J. Swings, and B. H. A. Rehm. 2003. Sphingopyxis chilensis sp. nov., a chlorophenol-degrading bacterium that accumulates polyhydroxy-alkanoate, and transfer of Sphingomonas alaskensis to Sphingopyxis alaskensis comb. nov. Int. J. Syst. Evol. Microbiol. 53: 473-477.
6. Kämpfer, P., R. Witzenberger, E. B. M. Denner, H.-J. Busse, and A. Neef. 2002. Sphingopyxis witflariensis sp. nov., isolated from activated sludge. Int. J. Syst. Evol. Microbiol. 52: 2029-2034.
7. Kim, M. K., W.-T. Im, H. Ohta, M. Lee, and S.-T. Lee. 2005. Sphingopyxis granuli sp. nov., a β-glucosidase producing bacterium in the family Sphingomonadaceae in α-4 subclass of the Proteobacteria. J. Microbiol. 43: 152-157.
8. Komagata, K. and K. Suzuki. 1987. Lipids and cell-wall analysis in bacterial systematics. J. Microbiol. Methods 19: 161-203.
9. Kumar, S., K. Tamura, and M. Nei. 2004. MEGA3: Integrated software for molecular evolutionary genetics analysis and sequence alignment briefings. Bioinformatics 5: 150-163.
10. Lee, J.-S., Y. K. Shin, J.-H. Yoon, M. Takeuchi, Y.-R. Pyun, and Y.-H. Park. 2001. Sphingomonas aquatilis sp. nov., Sphingomonas koreensis sp. nov. and Sphingomonas taejonensis sp. nov., yellow-pigmented bacteria isolated from natural mineral water. Int. J. Syst. Evol. Microbiol. 51: 1491-1498.
11. Mesbah, M., U. Premachandran, and W. Whitman. 1989. Precise measurement of the G+C content of deoxyribonucleic acid by high performance liquid chromatography. Int. J. Syst. Bacteriol. 39: 159-167.
12. Minnikin, D. E., A. G. O'Donnell, M. Goodfellow, G. Alderson, M. Athalye, A. Schaal, and J. H. Parlett. 1984. An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J. Microbiol. Methods 2: 233-241.
13. Moore, D. D. 1995. Preparation and analysis of DNA, pp. 2-11. In F. W. Ausubel, R. Brent, R. E. Kingston, D. D. Moore, J. G. Seidman, J. A. Smith, and K. Struhl (eds.), Current Protocols in Molecular Biology. Wiley, New York, U.S.A.
14. Pal, R., V. K. Bhasin, and R. Lal. 2006. Proposal to reclassify [Sphingomonas] xenophaga Stolz et al. 2000. and [Sphingomonas] taejonensis Lee et al. 2001. as Sphingobium xenophagum comb. nov. and Sphingopyxis taejonensis comb. nov., respectively. Int. J. Syst. Evol. Microbiol. 56: 667-670.
15. Saitou, N. and M. Nei. 1987. The neighbor-joining method: A new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4: 406-425.
16. Sasser, M. 1990. Identification of bacteria by gas chromatography of cellular fatty acids. MIDI Technical Note 101. MIDI, Newark, DE, U.S.A.
17. T. J. Microbiol. Biotechnol. 6: 68-69.
18. Stackebrandt, E. and B. M. Goebel. 1994. Taxonomic note: A place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int. J. Syst. Bacteriol. 44: 846-849.
19. Takeuchi, M., F. Kawai, Y. Shimada, and A. Yokota. 1993. Taxonomic study of polyethylene glycol-utilizing bacteria: Emended description of the genus Sphingomonas and new descriptions of Sphingomonas macrogoltabidus sp. nov., Sphingomonas sanguis sp. nov., and Sphingomonas terrae sp. nov. Syst. Appl. Microbiol. 16: 227-238.
20. Takeuchi, M., K. Hamana, and A. Hiraishi. 2001. Proposal of the genus Sphingomonas sensu stricto and three new genera, Sphingobium, Novosphingobium and Sphingopyxis, on the basis of phylogenetic and chemotaxonomic analyses. Int. J. Syst. Evol. Microbiol. 51: 1405-1417.
21. Ten, L. N., W.-T. Im, S.-H. Baek, J.-S. Lee, H.-M. Oh, and S.-T. Lee. 2006. Bacillus ginsengihumi sp. nov., a novel species isolated from soil of a ginseng field in Pocheon province, South Korea. J. Microbiol. Biotechnol. 16: 1554-1560.
22. Ten, L. N., S.-H. Baek, W.-T. Im, Q.-V. Liu, Z. Aslam, and S.-T. Lee. 2006. Bacillus panaciterrae sp. nov., isolated from soil of a ginseng field. Int. J. Syst. Evol. Microbiol. 56: 2861-2866.
23. Vancanneyt, M., F. Schut, C. Snauwaert, J. Goris, J. Swings, and J. C. Gottschal. 2001. Sphingomonas alaskensis sp. nov., a dominant bacterium from a marine oligotrophic environment. Int. J. Syst. Evol. Microbiol. 51: 73-79.
24. Wayne, L. G., D. J. Brenner, R. R. Colwell, P. A. D. Grimoxt, O. Kaniiler, M. I. Krichevsky, et al. 1987. International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int. J. Syst. Bacteriol. 37: 463-464.
25. Yoon, J.-H. and T.-K. Oh. 2005. Sphingopyxis flavimaris sp. nov., isolated from sea water of the Yellow Sea in Korea. Int. J. Syst. Evol. Microbiol. 55: 369-373.
26. Yoon, J.-H., C.-H. Lee, S.-H. Yeo, and T.-K. Oh. 2005. Sphingopyxis baekryungensis sp. nov., an orange-pigmented bacterium isolated from sea water of the Yellow Sea in Korea. Int. J. Syst. Evol. Microbiol. 55: 1223-1227.
27. Yoon, M.-H, L. N. Ten, and W.-T. Im. 2007. Cohnella panacarvi sp. nov., a xylanolytic bacterium isolated from the ginseng cultivating soil. J. Microbiol. Biotechnol. 17: 913-918.